Man pages for 3inar/nowaclean
Methods for Standardized Data Cleaning in the Norwegian Women and Cancer Group
| boxout | Outlier detection and batch-effect investigation by boxplots |
| corrected | Background correction of expression values |
| dens | Estimate array-wise densities |
| filtered | Filtering of bad quality/non-detectable probes |
| gene_names | Get gene name mapping |
| highlight | Highlight an observation in four different views |
| hla_hist | Blood type probes |
| lab_thresholds | Grounds for excluding a sample based on lab measures |
| lab_variables | Vector of the typical column names for lab variables |
| mapout | MA-plot-based outlier detection |
| normalized | Normalize gene expression values |
| plot.boxout | Plot method for 'boxout' objects |
| plot.dens | Plot method for 'dens' objects |
| plot.mapout | Plot method for 'mapout' objects |
| plot.prcout | Plot method for 'prcout' objects |
| prcout | PCA-based outlier detection |
| predict.boxout | Predict method for 'boxout' objects |
| predict.mapout | Predict method for 'mapout' objects |
| predict.prcout | Predict method for 'prcout' objects |
| preprocessed | Standard NOWAC preprocessing |
| probe_aggregated | Aggregates by annotation-based filtering |
